Nonnegative matrix factorization: an analytical and interpretive tool in computational biology

K Devarajan - PLoS computational biology, 2008 - journals.plos.org
In the last decade, advances in high-throughput technologies such as DNA microarrays
have made it possible to simultaneously measure the expression levels of tens of thousands …

Making sense of cancer genomic data

L Chin, WC Hahn, G Getz, M Meyerson - Genes & development, 2011 - genesdev.cshlp.org
High-throughput tools for nucleic acid characterization now provide the means to conduct
comprehensive analyses of all somatic alterations in the cancer genomes. Both large-scale …

Comprehensive genomic analysis identifies novel subtypes and targets of triple-negative breast cancer

MD Burstein, A Tsimelzon, GM Poage… - Clinical Cancer …, 2015 - aacrjournals.org
Purpose: Genomic profiling studies suggest that triple-negative breast cancer (TNBC) is a
heterogeneous disease. In this study, we sought to define TNBC subtypes and identify …

Metabolite profiling stratifies pancreatic ductal adenocarcinomas into subtypes with distinct sensitivities to metabolic inhibitors

A Daemen, D Peterson, N Sahu, R McCord… - Proceedings of the …, 2015 - pnas.org
Although targeting cancer metabolism is a promising therapeutic strategy, clinical success
will depend on an accurate diagnostic identification of tumor subtypes with specific …

Deep learning approach based on dimensionality reduction for designing electromagnetic nanostructures

Y Kiarashinejad, S Abdollahramezani… - npj Computational …, 2020 - nature.com
In this paper, we demonstrate a computationally efficient new approach based on deep
learning (DL) techniques for analysis, design and optimization of electromagnetic (EM) …

[書籍][B] Nonnegative matrix and tensor factorizations: applications to exploratory multi-way data analysis and blind source separation

A Cichocki, R Zdunek, AH Phan, S Amari - 2009 - books.google.com
This book provides a broad survey of models and efficient algorithms for Nonnegative Matrix
Factorization (NMF). This includes NMF's various extensions and modifications, especially …

Non-negative matrix factorization with sparseness constraints

PO Hoyer - Journal of machine learning research, 2004 - jmlr.org
Non-negative matrix factorization (NMF) is a recently developed technique for finding parts-
based, linear representations of non-negative data. Although it has successfully been …

Metagenes and molecular pattern discovery using matrix factorization

JP Brunet, P Tamayo, TR Golub, JP Mesirov - Proceedings of the national …, 2004 - pnas.org
We describe here the use of nonnegative matrix factorization (NMF), an algorithm based on
decomposition by parts that can reduce the dimension of expression data from thousands of …

A flexible R package for nonnegative matrix factorization

R Gaujoux, C Seoighe - BMC bioinformatics, 2010 - Springer
Abstract Background Nonnegative Matrix Factorization (NMF) is an unsupervised learning
technique that has been applied successfully in several fields, including signal processing …